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0
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1
reply
600
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Calculating PRS from pre-computed PGS Catalog
GWAS PRS PGS
updated 3 months ago by ▴ 440 • written 12 months ago by ▴ 380
0
votes
0
replies
293
views
Differentiate sequenced and imputed variants in BGEN files
imputation bgen ukb
12 months ago by user230613 ▴ 380
14
votes
10
replies
7.5k
views
fgsea after deseq2, criteria for ranking DEGs.
GSEA
updated 2.5 years ago by 85k • written 2.5 years ago by ▴ 380
0
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0
replies
7.5k
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Comment: Comment: fgsea after deseq2, criteria for ranking DEGs.
2.5 years ago by user230613 ▴ 380
0
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1
reply
7.5k
views
Comment: Comment: fgsea after deseq2, criteria for ranking DEGs.
2.5 years ago by user230613 ▴ 380
0
votes
1
reply
7.5k
views
Comment: Comment: fgsea after deseq2, criteria for ranking DEGs.
2.5 years ago by user230613 ▴ 380
0
votes
1
reply
26k
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Comment: Comment: Gene Set Enrichment Analysis
2.7 years ago by user230613 ▴ 380
0
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0
replies
1.4k
views
Comment: Comment: lfcShrink MA plot comparison
2.7 years ago by user230613 ▴ 380
0
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1
reply
1.4k
views
Comment: Comment: lfcShrink MA plot comparison
2.7 years ago by user230613 ▴ 380
0
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1
reply
1.4k
views
Comment: Comment: lfcShrink MA plot comparison
2.7 years ago by user230613 ▴ 380
2
votes
6
replies
1.4k
views
lfcShrink MA plot comparison
lfcShrink deseq2
updated 2.7 years ago by ★ 2.6k • written 2.7 years ago by ▴ 380
0
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1
reply
1.4k
views
Comment: C: convert CDS coordinates of a GTF to amino acid coordinates respect the resultant
4.3 years ago by user230613 ▴ 380
1
vote
3
replies
1.4k
views
convert CDS coordinates of a GTF to amino acid coordinates respect the resultant protein
protein coordinates
4.3 years ago by user230613 ▴ 380
9
votes
9
replies
3.9k
views
Extract sequence number "X" from multifasta file
fasta
updated 2.7 years ago by 44k • written 10.0 years ago by ▴ 380
2
votes
3
replies
6.2k
views
CIRCOS plot with Chip-Seq Data
ChIP-Seq circos
updated 4.5 years ago by ★ 3.4k • written 9.3 years ago by ▴ 380
0
votes
1
reply
4.9k
views
Comment: C: promoter position estimation
updated 4.9 years ago by 44k • written 8.9 years ago by ▴ 380
0
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0
replies
36k
views
Comment: A: Multi-Sample Vcf To Phylogenetic Tree.
updated 5.0 years ago by 44k • written 9.0 years ago by ▴ 380
21
votes
10
replies
17k
views
9 follow
Extract reads within given region, and their mates
bam samtools
updated 20 months ago by ▴ 20 • written 9.4 years ago by ▴ 380
4
votes
4
replies
5.4k
views
Does vcf-consensus support indels?
consensus vcf-consensus
updated 6.6 years ago by ▴ 70 • written 8.7 years ago by ▴ 380
0
votes
0
replies
14k
views
Comment: C: Difference between the Fasta files from UCSC and Gencode/Ensembl
6.7 years ago by user230613 ▴ 380
0
votes
1
reply
1.9k
views
Mate negative strand flag does not match read negative strand flag of mate
bam validatesamfile rnaseq
updated 6.8 years ago by 5.8k • written 6.9 years ago by ▴ 380
1
vote
1
reply
2.3k
views
consensus sequence of complex estructural variants
consensus estructural variant
updated 2.6 years ago by 44k • written 9.8 years ago by ▴ 380
0
votes
0
replies
6.0k
views
Comment: C: TPM VS FPKM VS TMM and K-mer specific expression quantification
6.9 years ago by user230613 ▴ 380
6
votes
9
replies
11k
views
6 follow
Intersect multiple bed and keep all fields
bed bedtools bedops
updated 2.1 years ago by 44k • written 9.3 years ago by ▴ 380
0
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1
reply
6.0k
views
Comment: C: TPM VS FPKM VS TMM and K-mer specific expression quantification
7.1 years ago by user230613 ▴ 380
6
votes
1
reply
3.3k
views
GATK; Variant calling RNA-Seq best practices: bam processing steps
variant-calling RNA-Seq gatk
updated 13 months ago by 44k • written 7.2 years ago by ▴ 380
8
votes
4
replies
6.0k
views
TPM VS FPKM VS TMM and K-mer specific expression quantification
RNA-Seq kmer
updated 7.3 years ago by 6.9k • written 7.5 years ago by ▴ 380
0
votes
1
reply
1.6k
views
Comment: C: Specific sequence abundance using RNA-Seq
7.4 years ago by user230613 ▴ 380
3
votes
4
replies
1.6k
views
Specific sequence abundance using RNA-Seq
expression RNA-Seq
updated 7.4 years ago by 20k • written 7.4 years ago by ▴ 380
0
votes
1
reply
22k
views
Comment: C: What Ngs Read Simulators Are Available For Paired-End Data?
7.4 years ago by user230613 ▴ 380
0
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1
reply
22k
views
Comment: C: What Ngs Read Simulators Are Available For Paired-End Data?
7.4 years ago by user230613 ▴ 380
0
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0
replies
2.4k
views
Comment: C: Subset of transcripts - Do I need to re-scale the TPM values?
7.5 years ago by user230613 ▴ 380
3
votes
3
replies
2.4k
views
Subset of transcripts - Do I need to re-scale the TPM values?
RNA-Seq tpm kallisto
7.5 years ago by user230613 ▴ 380
0
votes
1
reply
10k
views
Comment: C: kallisto: strand-specific and fragment length calculation
7.5 years ago by user230613 ▴ 380
7
votes
11
replies
10k
views
7 follow
kallisto: strand-specific and fragment length calculation
RNA-Seq kallisto
updated 7.5 years ago by ▴ 130 • written 7.5 years ago by ▴ 380
1
vote
3
replies
2.7k
views
bam-readcount tool: output zero coverage bases
bam-readcount
updated 7.6 years ago by 22k • written 7.6 years ago by ▴ 380
2
votes
8
replies
2.6k
views
samstat and samtools differ in the number of MAPQ=0 reads/alignments.
bwa samtools samstat
7.6 years ago by user230613 ▴ 380
0
votes
0
replies
2.7k
views
Comment: C: bam-readcount tool: output zero coverage bases
7.6 years ago by user230613 ▴ 380
0
votes
1
reply
2.6k
views
Comment: C: samstat and samtools differ in the number of MAPQ=0 reads/alignments.
7.6 years ago by user230613 ▴ 380
0
votes
1
reply
2.6k
views
Comment: C: samstat and samtools differ in the number of MAPQ=0 reads/alignments.
7.6 years ago by user230613 ▴ 380
0
votes
1
reply
2.6k
views
Comment: C: number of MAPQ=0 reads or alignments in BWA MEM output
7.6 years ago by user230613 ▴ 380
0
votes
0
replies
2.6k
views
Comment: C: samstat and samtools differ in the number of MAPQ=0 reads/alignments
7.6 years ago by user230613 ▴ 380
0
votes
1
reply
2.0k
views
Varscan2 filters AND usability of the tool - looking for opinions
varscan2 variant calling varscan somatic
7.7 years ago by user230613 ▴ 380
0
votes
1
reply
4.2k
views
Comment: C: WES reads mapping: RNASeq or DNASeq aligner?
7.7 years ago by user230613 ▴ 380
5
votes
4
replies
4.2k
views
WES reads mapping: RNASeq or DNASeq aligner?
mapping alignment wes
updated 7.7 years ago by ★ 2.8k • written 7.7 years ago by ▴ 380
7
votes
7
replies
7.0k
views
NGS data simulation: VarSim or BAMSurgeon?
simulation varsim bamsurgeon
updated 7.8 years ago by ★ 2.9k • written 7.8 years ago by ▴ 380
0
votes
0
replies
4.6k
views
Comment: C: SomaticSniper VS Varscan2
7.8 years ago by user230613 ▴ 380
5
votes
3
replies
4.6k
views
SomaticSniper VS Varscan2
varscan2 variant-calling somaticSniper
updated 13 months ago by 44k • written 7.8 years ago by ▴ 380
0
votes
1
reply
3.0k
views
rsem-calculate-expression prints out the help information when trying to run it
rsem
updated 8.0 years ago by 20 • written 8.1 years ago by ▴ 380
6
votes
4
replies
4.3k
views
GFF3 ID field: "Official" nomenclature
gff3
updated 8.3 years ago by 4.1k • written 8.7 years ago by ▴ 380
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